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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGTGGCTCTTGCAAATCAGAAACTTCTTGGACTTAACTCGgtgagtttttccccttgtcactgtgtgaaagttgtaatcctttagtgtatgtataataaactatttccaattgtctgtcttgaagagtgcatgctgttgt...

Basic information

species Glycine max
transcript GLYMA02G47860.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G47860.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv12s0057g01200.t01 (Vitis vinifera), 5'ss of exon 12
GTTGTGGCTCTTGCAAATCAGAAACTTCTTGGACTTAACTCGgtgagtttttccccttgtcactgtgtgaaagt-tgtaatcctttagtgtat-----gtataataaactatttccaattg---tctgtcttgaagagtgcatgctgttgt---------
|||||||||||||||||||||||||| ||||||||||   | ||||||| ||     |||   ||||||   || |||    | |   ||||         | ||    || || | || |    ||   || |  ||| | | |     |         
GTTGTGGCTCTTGCAAATCAGAAACTGCTTGGACTTAGTCCCgtgagttcttaaatctgtgtgtgtgtgtgtgtgtgtgtcacatgcatgtactcctcaccttattgtttaatttctatcggtaccttgttttacaagtacctaccccatttgcttgcag
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|209708681|gb|BW678862.1|BW678862
EST:     GTTGTGGCTCTTGCAAATCAGAAACTTCTTGGACTTAACTCG                         GAAAAAGTAAACTTACACGGTGGAGCTGTTGCACTGGGTCATCCTCTTGGT
genomic: GTTGTGGCTCTTGCAAATCAGAAACTTCTTGGACTTAACTCGgtgagttttt ... tattttgcagGAAAAAGTAAACTTACACGGTGGAGCTGTTGCACTGGGTCATCCTCTTGGT
EST: gi|193655659|gb|FK601429.1|FK601429
EST:     AATCAGAAACTTCTTTGGTACTTAACTCG                         GAAAAAGTAAACTTACACGGTGGAGCTGTTGCACTGGGTCATCCTCTTGGT
genomic: AATCAGAAACTTC-TTGG-ACTTAACTCGgtgagttttt ... tattttgcagGAAAAAGTAAACTTACACGGTGGAGCTGTTGCACTGGGTCATCCTCTTGGT
EST: gi|193383945|gb|FK351350.1|FK351350
EST:     GTTGTGGCTCTTGCAAATCAGAAACTTCTTGGACTTAACTCG                         GAAAAAGTAAACTTACACGGTGGAGCTGTTGCACTGGGTCATCCTCTTGGT
genomic: GTTGTGGCTCTTGCAAATCAGAAACTTCTTGGACTTAACTCGgtgagttttt ... tattttgcagGAAAAAGTAAACTTACACGGTGGAGCTGTTGCACTGGGTCATCCTCTTGGT
EST: gi|193329280|gb|FK296518.1|FK296518
EST:     GTTGTGGCTCTTGCAAATCAGAAACTTCTTGGACTTAACTCG                         GAAAAAGTAAACTTACACGGTGGAGCTGTTGCACTGGGTCATCCTCTTGGT
genomic: GTTGTGGCTCTTGCAAATCAGAAACTTCTTGGACTTAACTCGgtgagttttt ... tattttgcagGAAAAAGTAAACTTACACGGTGGAGCTGTTGCACTGGGTCATCCTCTTGGT
EST: gi|209700567|gb|BW670311.1|BW670311
EST:     GTTGTGGCTCTTGCAAATCAGAAACTTCTTGGACTTAACTCG                         GAAAAAGTAAACTTACACGGTGGAGCTGTTGCACTGGGTCATCCTCTTGGT
genomic: GTTGTGGCTCTTGCAAATCAGAAACTTCTTGGACTTAACTCGgtgagttttt ... tattttgcagGAAAAAGTAAACTTACACGGTGGAGCTGTTGCACTGGGTCATCCTCTTGGT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTGTGGCTCTTGCAAATCAGAAACTTCTTGGACTTAACTCGgtgagtttttccccttgtcactgtgtgaaagttgtaatcctttagtgtatgtataataaactatttccaattgtctgtcttgaagagtgcatgctgttgt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttcccc